Contacts of the strand formed by residues 1046 - 1058 (chain I) in PDB entry 6ASX
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with VAL1046 (chain I).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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839I VAL* 4.1 8.7 - - + -
840I SER 3.4 31.0 - - - +
841I ARG* 4.0 16.4 - - + +
936I ARG* 3.9 14.9 + - - -
1042I LEU* 3.8 24.3 - - + +
1043I ALA* 3.4 29.6 - - + +
1044I PRO 3.5 2.2 + - - +
1045I GLY* 1.3 79.4 + - - +
1047I LEU* 1.3 67.1 + - - +
1048I LYS 3.9 8.3 - - - +
1049I ILE* 4.0 16.8 - - + -
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Residues in contact with LEU1047 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
840I SER* 2.9 17.8 + - - +
841I ARG 5.1 1.1 - - - +
842I ASP* 4.4 22.0 - - + +
847I PRO* 4.5 16.8 - - + -
848I GLU 5.6 3.1 - - - +
935I THR* 4.0 0.3 - - - -
936I ARG* 2.9 47.4 + - + +
938I GLY 6.1 1.3 - - - +
939I VAL* 4.2 21.9 - - + +
1042I LEU* 3.6 4.7 - - - -
1045I GLY 4.2 9.2 - - - +
1046I VAL* 1.3 83.1 - - - +
1048I LYS* 1.3 67.7 + - + +
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Residues in contact with LYS1048 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
838I CYS 4.4 0.7 - - - +
839I VAL 3.9 0.5 - - - -
840I SER* 3.2 40.0 + - - +
850I ILE* 3.7 29.2 - - + +
933I VAL* 5.2 4.7 - - + -
934I PHE 3.1 15.3 - - - +
935I THR* 4.7 2.5 - - - -
939I VAL* 4.5 18.2 - - - +
940I GLU 4.3 5.9 + - - -
941I LYS* 3.4 39.0 - - + +
1042I LEU* 4.0 2.6 - - - +
1046I VAL* 3.9 0.5 - - - +
1047I LEU* 1.3 80.4 - - + +
1049I ILE* 1.3 65.9 - - - +
1050I VAL* 5.1 11.2 - - + -
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Residues in contact with ILE1049 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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837I ALA* 5.2 3.1 - - + -
838I CYS 4.1 5.8 - - - +
839I VAL* 3.8 29.8 - - + -
932I GLN 3.8 0.7 - - - +
933I VAL* 3.5 1.9 - - - -
934I PHE* 2.9 51.8 + - + +
1042I LEU* 3.9 21.7 - - + +
1043I ALA* 6.3 1.3 - - + -
1046I VAL* 4.0 14.6 - - + -
1048I LYS* 1.3 77.9 - - - +
1050I VAL* 1.3 67.4 + - - +
1051I LYS* 4.2 25.1 - - + -
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Residues in contact with VAL1050 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
837I ALA* 3.7 1.9 - - - -
838I CYS* 3.0 38.1 + - - +
850I ILE* 4.7 19.5 - - + -
870I ILE* 4.4 12.3 - - + -
884I VAL* 3.8 28.3 - - + +
918I LEU* 5.5 0.5 - - - +
931I VAL* 4.3 12.8 - - + -
932I GLN 3.3 8.1 - - - +
933I VAL* 3.8 23.1 - - + -
1048I LYS* 4.3 8.9 - - + -
1049I ILE* 1.3 77.1 - - - +
1051I LYS* 1.3 68.7 + - - +
1052I VAL* 4.3 2.4 + - + -
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Residues in contact with LYS1051 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87I ILE 5.7 0.4 + - - -
88I ARG 5.5 1.8 + - - -
835I GLU* 3.4 28.0 + - + +
836I LEU 3.3 12.6 - - - +
837I ALA* 4.6 9.0 - - + -
930I ASP 4.1 0.3 - - - +
931I VAL* 3.4 6.1 - - - +
932I GLN* 2.9 43.5 + - + +
934I PHE* 4.0 28.5 - - + -
1049I ILE* 4.0 17.9 + - + -
1050I VAL* 1.3 77.1 - - - +
1052I VAL* 1.3 64.1 + - - +
1053I TYR* 4.3 11.9 + - + +
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Residues in contact with VAL1052 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
835I GLU* 3.9 0.4 - - - -
836I LEU* 3.0 37.2 + - + +
870I ILE* 5.0 1.6 - - + -
871I VAL* 4.4 10.1 - - + -
883I LEU* 3.8 28.5 - - + -
884I VAL* 4.2 24.2 - - + -
918I LEU* 5.5 1.8 - - + +
928I VAL* 3.7 22.4 - - + -
930I ASP 3.8 2.7 - - - -
931I VAL* 4.1 13.2 - - + -
1050I VAL* 4.3 5.1 + - + -
1051I LYS* 1.3 79.2 - - - +
1053I TYR* 1.3 75.0 + - - +
1054I LEU* 4.0 2.5 - - + +
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Residues in contact with TYR1053 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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757I THR* 5.7 3.8 - - - -
758I ARG* 4.1 14.1 - - + -
833I ILE* 4.3 11.9 - - + -
834I GLN 3.5 16.8 - - - +
835I GLU* 3.5 39.2 + - + -
928I VAL* 3.4 22.3 - - - +
929I ILE* 4.2 18.2 - - + -
930I ASP* 3.0 47.6 + - + +
932I GLN* 4.1 18.8 - - + +
1051I LYS* 4.7 9.6 + - + +
1052I VAL* 1.3 80.4 - - - +
1054I LEU* 1.3 66.9 + - - +
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Residues in contact with LEU1054 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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833I ILE* 3.3 5.8 - - - +
834I GLN* 2.8 43.1 + - + +
836I LEU* 3.8 26.9 - - + -
877I VAL* 3.8 22.9 - - + -
883I LEU* 4.0 20.4 - - + -
920I VAL* 4.6 15.3 - - + -
924I VAL* 5.1 4.0 - - + -
925I SER 3.4 27.1 - - - +
926I GLY* 4.4 1.8 - - - -
927I THR 3.8 5.8 - - - +
928I VAL* 4.5 9.6 - - + -
929I ILE* 5.2 0.7 - - - -
1052I VAL* 4.0 5.4 - - + +
1053I TYR* 1.3 82.3 - - - +
1055I ALA* 1.3 61.3 + - - +
1056I VAL* 4.1 2.1 + - + +
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Residues in contact with ALA1055 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68G TYR* 4.2 24.1 + - + -
831I ILE* 5.2 2.5 - - + -
832I HIS 3.5 8.5 - - - +
833I ILE* 4.2 12.3 - - + -
926I GLY* 3.3 3.3 - - - -
927I THR* 3.2 35.9 + - - +
929I ILE* 3.9 20.6 - - + -
1054I LEU* 1.3 73.7 - - - +
1056I VAL* 1.3 62.7 + - - +
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Residues in contact with VAL1056 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68G TYR* 4.7 2.0 - - - -
831I ILE* 3.8 3.1 - - - +
832I HIS* 2.8 36.1 + - + +
834I GLN* 5.0 14.8 - - + +
925I SER* 3.3 42.8 - - - +
926I GLY* 3.9 2.0 - - - -
1054I LEU* 4.9 3.8 - - + +
1055I ALA* 1.3 78.8 - - - +
1057I LYS* 1.3 64.5 + - - +
1058I ARG* 3.7 44.9 - - + +
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Residues in contact with LYS1057 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67G GLU* 4.2 17.1 + - - -
68G TYR* 3.7 24.9 + - - +
79G LEU* 4.2 23.2 - - - +
82G LEU* 6.3 0.2 - - - +
83G LEU* 5.8 3.0 - - - +
693I LEU* 4.6 12.3 - - - +
826I ASP* 6.4 0.2 - - - -
829I THR* 3.6 28.3 - - + -
830I THR 3.9 7.6 - - - +
831I ILE* 4.6 9.0 - - + +
1055I ALA 4.3 0.6 + - - -
1056I VAL* 1.3 76.4 - - - +
1058I ARG* 1.3 61.4 + - - +
1059I ARG* 4.0 30.2 + - - +
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Residues in contact with ARG1058 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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829I THR* 4.6 0.7 - - - -
830I THR* 3.2 30.6 + - + +
832I HIS* 3.3 37.6 + - + +
834I GLN* 4.5 17.8 - - - +
924I VAL* 5.0 11.1 - - - +
925I SER 5.7 0.2 - - - +
1056I VAL* 3.7 38.5 + - + +
1057I LYS* 1.3 73.5 - - - +
1059I ARG* 1.3 67.0 + - - +
1061I GLN* 6.0 1.8 - - - +
1234I LYS* 4.0 0.6 + - - -
1238I LEU* 3.9 18.2 - - + -
1240I ASP* 3.0 40.9 + - - +
1241I ASP* 4.5 13.9 + - - -
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il